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Towards integrated 3D reconstruction of whole human brains at subcellular resolution

以亚细胞分辨率对整个人脑进行集成 3D 重建

基本信息

批准号：
10415091
负责人：
Kwanghun Chung
金额：
$ 168.47万
依托单位：
MASSACHUSETTS INSTITUTE OF TECHNOLOGY
依托单位国家：
美国
项目类别：
财政年份：
2018
资助国家：
美国
起止时间：
2018-08-22 至 2023-05-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10415091
关键词：
3-Dimensional Algorithms Anatomy Antibodies Architecture Atlases Axon Brain Brain Mapping Brain Stem Brain region Cell Nucleus Cells Cerebral hemisphere Chemical Engineering Chemical Synapse Communities Complex Custom Cytoplasm Data Data Set Databases Detection Development Diffusion Disease Dyes Fiber Formalin Functional disorder Goals Histologic Human Hybrids Hydrogels Image Imaging technology Individual Knowledge Label Left Libraries Link Location MRI Scans Magnetic Resonance Magnetic Resonance Imaging Maps Methods Microscope Mining Molecular Molecular Profiling Morphology Mus Optics Pattern Permeability Phenotype Process Property Proteins Proteome Research Resolution Sampling Scanning Slice Stains Structure Synapses Techniques Technology Thick Tissues Work antibody libraries automated algorithm base brain cell brain tissue cell type cost cost effective deep learning high dimensionality imaging biomarker insight lens macromolecule molecular phenotype multidisciplinary multimodal data multimodality new technology novel novel therapeutics preservation reconstruction spectrograph two-photon

项目摘要

Project Summary A detailed understanding of the anatomical and molecular architectures of brain cells and their brain-wide organization is essential for interrogating human brain function and dysfunction. Extensive efforts have been made toward mapping brain cells through various lenses, which have established invaluable databases yielding new insights. However, integrative extraction of the multimodal properties of various cell-types brain-wide within the same brain, crucial to elucidating complex intercellular relationships, remains nearly impossible. We have developed high-throughput, cost-effective technology platforms to create a fully integrated three-dimensional (3D) human brain cell atlas by simultaneously mapping high-dimensional features (e.g., spatial, molecular, morphological, and microenvironment information) of all cells acquired from the same whole brain. The proposed work will establish the most comprehensive 3D human brain map to date, with unprecedented resolution and completeness. We envision that this atlas will facilitate the integration of a broad range of studies and allow the research community to interrogate human brain structure and function at multiple levels. In Aim 1, we will apply a novel technology to transform whole human brain tissue into indestructible hydrogel–tissue hybrids that allow highly multiplexed molecular labeling and subcellular-resolution volume imaging. In Aim 2, we will apply scalable labeling and imaging technologies to map the brain-wide 3D distribution of various cell-type and structural markers at subcellular resolution within the same brain. Our chemical engineering–based approach to this aim will enable cost-effective, lossless 3D labeling of the entire human brain at lower cost as traditional subsampling approaches. True volume labeling and subcellular-resolution imaging will allow us to extract fine morphological and connectivity information from labeled cells and reconstruct the microenvironment of all cells. In Aim 3, we will use a host of rapid and highly automated algorithms to perform unbiased, integrative high- dimensional phenotyping of all cells based on their spatial location, molecular expression, morphology, and microenvironment. In Aim 4, we will perform super-resolution phenotyping of cells in a selected brain region from the same sample used in Aim 3 to map inter-areal axonal connectivity at single-fiber resolution and to characterize chemical synapses. This integrative approach will likely unveil unique cell-types and brain regions, a crucial step toward a better understanding of brain function. The complete 3D dataset will be linked to magnetic resonance and diffusion spectrum images and existing reference atlases to facilitate the integration of a wide breadth of study at multiple levels and to make the data publicly accessible for mining and analysis.

项目摘要详细了解脑细胞及其全脑的解剖和分子结构组织对于询问人脑功能和功能障碍至关重要。经过广泛努力，通过各种镜头绘制脑细胞，这些镜头已经建立了宝贵的数据库，产生新的见解。然而，各种细胞类型的多峰特性的综合提取对于阐明复杂的细胞间关系至关重要的同一大脑中的全脑范围内的细胞，仍然几乎不可能的我们开发了高通量、高性价比的技术平台，通过同时映射高维人脑细胞图谱特征（例如，空间、分子、形态学和微环境信息）来自同一个大脑这项拟议中的工作将建立最全面的3D人脑地图迄今为止，以前所未有的决心和完整性。我们设想，这本地图集将有助于整合广泛的研究，并允许研究界询问人脑在多个层次上的结构和功能。在目标1中，我们将应用一种新技术将整个人脑组织转化为坚不可摧的允许高度多重分子标记和亚细胞分辨率体积的水凝胶-组织杂合体显像在Aim 2中，我们将应用可扩展的标记和成像技术来绘制全脑3D 不同细胞类型和结构标记物在同一脑内以亚细胞分辨率的分布。我们化学工程为基础的方法，这一目标将使成本效益，无损的3D标记的整个人类的大脑以较低的成本作为传统的子采样方法。真实体积标记和亚细胞分辨率成像将使我们能够从其中提取精细的形态和连通性信息标记细胞并重建所有细胞的微环境。在目标3中，我们将使用一系列快速和高度自动化的算法来执行无偏的，综合的高性能，基于它们的空间位置、分子表达、形态学和生物学特性，对所有细胞进行三维表型分析。微环境在目标4中，我们将对选定的大脑区域中的细胞进行超分辨率表型分析从Aim 3中使用的同一样本中，以单纤维分辨率绘制区域间轴突连接，表征化学突触。这种综合方法可能会揭示独特的细胞类型和大脑这是更好地了解大脑功能的关键一步。完整的3D数据集将与磁共振和扩散光谱图像以及现有参考图谱相关联，在多个层面上整合广泛的研究，并使数据公开可供挖掘和分析